I can kind of reproduce this -- I am unable to select pads in the footprint editor when F.Cu is hidden but other pad layers (mask/paste) are visible. However, I can select other objects like silkscreen even with F.Cu hidden, and I can't edit the pads by pressing 'e'. Still, pads should be selectable if any part is visible so I'll fix that part at least.
I can kind of reproduce this -- I am unable to select pads in the footprint editor when F.Cu is hidden but other pad layers (mask/paste) are visible. However, I can select other objects like silkscreen even with F.Cu hidden, and I can't edit the pads by pressing 'e'. Still, pads should be selectable if any part is visible so I'll fix that part at least.